User: Thomas Johnson

Reputation:
70
Status:
New User
Location:
New Zealand
Last seen:
2 months, 3 weeks ago
Joined:
7 years, 4 months ago
Email:
t*****@outdoorsnewzealand.co.nz

Posts by Thomas Johnson

<prev • 3 results • page 1 of 1 • next >
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Answer: A: Get number of variations in a huge VCF using Tabix?
... The current version of bcftools (v1.3) will store metadata in the index file when using bcftools index and then allow you to access either the total variant count or the number of variants per contig just by reading the index. The [Bcftools documentation][1] has details -n, --nrecords prin ...
written 2.8 years ago by Thomas Johnson70
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Answer: A: Batch effects in sequencing data
... Have seen some large batch effects coming from batches using different versions of illumina chemistry. With the older chemsitry on hiseq we see many regions with very low coverage, these regions tend to be GC rich. More recently we've done more hiseq but with PCR free libraries and a lot of these pr ...
written 3.9 years ago by Thomas Johnson70
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Answer: A: How To Convert Vcf File To Plink Ped Format?
... Check out Plink 1.9 an alpha version of plink with VCF support. https://www.cog-genomics.org/plink2/ ...
written 5.5 years ago by Thomas Johnson70

Latest awards to Thomas Johnson

Good Answer 15 months ago, created an answer that was upvoted at least 5 times. For A: Get number of variations in a huge VCF using Tabix?
Appreciated 2.6 years ago, created a post with more than 5 votes. For A: Get number of variations in a huge VCF using Tabix?
Teacher 2.6 years ago, created an answer with at least 3 up-votes. For A: Get number of variations in a huge VCF using Tabix?

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